Repositories list

• NAHLN_AMR

  Public
  Python

  •22 forks•44 stars•00 issues•00 pull requests•Updated Apr 22, 2026Apr 22, 2026

• Flumina

  Public
  A pipeline for the analysis of Illumina sequence data from Influenza viruses

  R

  •

  GNU General Public License v3.0

  •22 forks•11 star•00 issues•00 pull requests•Updated Apr 21, 2026Apr 21, 2026

• GenoFLU

  Public
  Influenza data pipeline to automate genotyping assignment

  Python

  •

  GNU General Public License v3.0

  •1111 forks•4141 stars•22 issues•00 pull requests•Updated Mar 19, 2026Mar 19, 2026

• vSNP3

  Public
  vSNP -- validate SNPs

  bam-filessnpspipeline+ 16

  bam-filessnpspipelinegenomicsphylogeneticsinfluenzawgshigh-throughput-sequencingbwa-memtuberculosis+ 9

  Python

  •

  GNU General Public License v3.0

  •22 forks•1414 stars•11 issue•00 pull requests•Updated Mar 11, 2026Mar 11, 2026

• vsnp3_test_dataset

  Public
  Dataset for testing vSNP version 3 installation

  11 fork•00 stars•00 issues•00 pull requests•Updated Feb 9, 2026Feb 9, 2026

• nvsl_bioinformatic_training

  Public
  The NVSL Bioinformatics Workshop will feature training on command-line bioinformatic tools, processes, and resources routinely used at NVSL for diagnostic testi…

  HTML

  •11 fork•11 star•00 issues•00 pull requests•Updated Oct 15, 2024Oct 15, 2024

• vSNP

  Public
  vSNP -- validate SNPs

  bam-filessnpspipeline+ 13

  bam-filessnpspipelinegenomicsvcfphylogeneticssnpwgshigh-throughput-sequencinghigh+ 6

  Python

  •

  GNU General Public License v3.0

  •1212 forks•2323 stars•44 issues•00 pull requests•Updated Sep 19, 2024Sep 19, 2024

• vSNP_reference_options

  Public
  vSNP supporting files

  GNU General Public License v3.0

  •22 forks•00 stars•00 issues•00 pull requests•Updated Sep 21, 2021Sep 21, 2021

• minimum_fastqs

  Public
  testing files: smallest file size and still complete through vSNP_step1.py

  11 fork•00 stars•00 issues•00 pull requests•Updated Jan 7, 2020Jan 7, 2020

• vSNP_archive

  Public
  Archived versions of vSNP

  Python

  •

  Apache License 2.0

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jan 7, 2020Jan 7, 2020

• vcf_test_files

  Public
  A small set of VCFs with expected output tables for script testing

  11 fork•00 stars•00 issues•00 pull requests•Updated Jan 28, 2019Jan 28, 2019

• fastq_data_set-brucella

  Public
  Brucella FASTQ test files

  11 fork•00 stars•00 issues•00 pull requests•Updated Sep 17, 2018Sep 17, 2018

• fastq_data_set-tb_complex

  Public
  11 fork•00 stars•00 issues•00 pull requests•Updated May 31, 2017May 31, 2017